Hugo Bastos

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Contact:
hbastos@xldb.di.fc.ul.pt
Research Interests:
Bioinformatics/Computational Biology, Proteomics, Structural Protein Biology,
Data (and Text) Mining, Comparative Genomics, Biological Ontologies.


Publications

BibTeX source
Hugo Bastos, Lisete Sousa, Luka A. Clarke, Francisco M. Couto 2015: GRYFUN: a web application for GO term annotation visualization and analysis in protein sets. PLoS ONE 10(3), e0119631.

DOI | | Document | BibTeX source
Hugo Bastos, Luka A. Clarke, Francisco M. Couto 2013: Annotation extension through protein family annotation coherence metrics. Frontiers in Genetics.

| BibTeX source
Daniel Faria, Andreas Schlicker, Catia Pesquita, Hugo Bastos, Antonio E N Ferreira, Mario Albrecht, Andre Falcao 2012: Mining GO Annotations for Improving Annotation Consistency. PLoS ONE 7(7), e40519.

Document | BibTeX source
Tiago Grego, Catia Pesquita, Hugo Bastos, Francisco M. Couto 2012: Chemical Entity Recognition and Resolution to ChEBI. ISRN Bioinformatics (2012), 9.

Document | BibTeX source
Bruno Tavares, Hugo Bastos, Daniel Faria, Joao D. Ferreira, Tiago Grego, Catia Pesquita, Francisco Couto, The Biomedical Ontology Applications (BOA) framework.Proceedings of ICBO 2011.

Document | BibTeX source
Hugo Bastos, Bruno Tavares, Catia Pesquita, Daniel Faria, Francisco Couto: Application of Gene Ontology to Gene Identification. In Silico Tools for Gene Discovery: Methods in Molecular Biology. Springer, 2011.

Document | BibTeX source
Hugo Bastos, Francisco Couto, Pedro M. Coutinho, Exploring Gene Ontology relationships in Enzyme Families: An application to Polysaccharide Lyases (as a poster).9th Carbohydrate Bioengineering Meeting p. 67, May, 2011.

| BibTeX source
Tiago Grego, João D. Ferreira, Catia Pesquita, Hugo Bastos, Diogo Vila Viçosa, João Freire, Francisco Couto, Chemical and Metabolic Pathway Semantic Similarity Technical Report. TR 2010-01. University of Lisbon, Faculty of Sciences, LASIGE, March 2010.

Document | BibTeX source
Hugo Bastos, Tiago Grego, Francisco Couto, Pedro M. Coutinho, Enzyme family coherence assessment: validation and prediction.JB'2009 - Challenges in Bioinformatics p. 26-30, Lisbon, Portugal, November, 2009.

DOI | | Document | BibTeX source
Catia Machado, Hugo Bastos, Francisco Couto, GREAT: Gene Regulation EvAluation Tool.Proceedings of the 3rd International Workshop on Practical Applications of Computational Biology and Bioinformatics (IWPACBB'09) p. 930-933, 2009. Lecture Notes in Computer Science, Springer Berlin / Heidelberg.

Document | Poster | BibTeX source
Hugo Bastos, Catia Machado, Ana T. Freitas, Francisco Couto, Retrieving Relevant Documents from BioLiterature for the Curation of Yeast Gene Regulatory Networks.First Portuguese Forum on Computational Biology (as a poster) IGC, 2008.

DOI | Document | Presentation | BibTeX source
Francisco Couto, Tiago Grego, Catia Pesquita, Hugo Bastos, R. Torres, P. Sanchez, L. Pascual, C. Blaschke, Identifying Bioentity Recognition Errors of Rule-Based Text-Mining Systems.IEEE Third International Conference on Digital Information Management (ICDIM) 2008.

DOI | | BibTeX source
Catia Pesquita, Daniel Faria, Hugo Bastos, António Ferreira, Andre O Falcao, Francisco Couto 2008: Metrics for GO based protein semantic similarity: a systematic evaluation. BMC Bioinformatics Suppl 5(9), S4.

DOI | | BibTeX source
Hugo Bastos, Daniel Faria, Catia Pesquita, Andre O. Falcao, BOLOS: BLAST Ontology-Linked hOmologue Stars.SAC '08: Proceedings of the 2008 ACM symposium on Applied computing New York, NY, USA, March, 2008. ACM.

BibTeX source
Hugo Bastos, Clustering algorithms for improving protein functional classification techniques Master Thesis, University of Lisbon, Faculty of Sciences, February 2008.

BibTeX source
Hugo Bastos, Daniel Faria, Catia Pesquita, Andre O. Falcao, Using GO terms to evaluate protein clustering.BioOntologies SIG at ISMB/ECCB - 15th Annual International Conference on Intelligent Systems for Molecular Biology (ISMB) July, 2007.

Document | BibTeX source
Catia Pesquita, Daniel Faria, Hugo Bastos, Andre O. Falcao, Francisco Couto, Evaluating GO-based Semantic Similarity Measures.BioOntologies SIG at ISMB/ECCB - 15th Annual International Conference on Intelligent Systems for Molecular Biology (ISMB) July, 2007.


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